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. 2008 Jul 16;36(14):4736–4744. doi: 10.1093/nar/gkn424

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© 2008 The Author(s)

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 5. — Analysis of tetracycline binding to 70S and 80S ribosomes. (a) Binding of [³H]Tet to empty 70S (diamonds, dashed line) and 80S (circles, solid line) ribosomes. (b) Poly(U)-poly(Phe) synthesis in bacterial (diamonds, dashed line) and mammalian (circles, solid line) systems in the presence of increasing amounts of tetracycline. The 100% corresponds to 60 and 15 incorporated Phe per ribosome in the bacterial and eukaryotic system, respectively. (c) Effect of tetracycline on non-enzymatic A-site binding with AcPhe-tRNA (blue) and enzymatic A-site binding with ternary complex (red). Deacylated tRNA^fMet and were used to occupy the P site in 70S (dashed line) and 80S systems (solid line), respectively. The 100% corresponds to a ν value of 0.7 for both 70S and 80S ribosomes for non-enzymatic A-site binding and 0.83 and 0.6 for 70S and 80S ribosomes, respectively, for enzymatic A-site binding. (d) Parts of helices 34 from phylogenetic conservation maps superimposed onto the bacterial (E. coli), archaeal (Methanococcus jannaschii) and eukaryotic (Saccharomyces cerevisiae) 16S-type secondary structures (http://www.rna.ccbb.utexas.edu/). ACGU, 98+% conserved positions; acgu, 90–98% conserved positions; filled circle, 80–90% conserved positions; open circle, less than 80% conserved positions. The nucleotides of the right strand are connected for the sake of clarity; number of sequences considered: Bacteria, 4214; Archaea, 174; Eukaryota, 1939.

Inline graphic — Analysis of tetracycline binding to 70S and 80S ribosomes. (a) Binding of [³H]Tet to empty 70S (diamonds, dashed line) and 80S (circles, solid line) ribosomes. (b) Poly(U)-poly(Phe) synthesis in bacterial (diamonds, dashed line) and mammalian (circles, solid line) systems in the presence of increasing amounts of tetracycline. The 100% corresponds to 60 and 15 incorporated Phe per ribosome in the bacterial and eukaryotic system, respectively. (c) Effect of tetracycline on non-enzymatic A-site binding with AcPhe-tRNA (blue) and enzymatic A-site binding with ternary complex (red). Deacylated tRNA^fMet and were used to occupy the P site in 70S (dashed line) and 80S systems (solid line), respectively. The 100% corresponds to a ν value of 0.7 for both 70S and 80S ribosomes for non-enzymatic A-site binding and 0.83 and 0.6 for 70S and 80S ribosomes, respectively, for enzymatic A-site binding. (d) Parts of helices 34 from phylogenetic conservation maps superimposed onto the bacterial (E. coli), archaeal (Methanococcus jannaschii) and eukaryotic (Saccharomyces cerevisiae) 16S-type secondary structures (http://www.rna.ccbb.utexas.edu/). ACGU, 98+% conserved positions; acgu, 90–98% conserved positions; filled circle, 80–90% conserved positions; open circle, less than 80% conserved positions. The nucleotides of the right strand are connected for the sake of clarity; number of sequences considered: Bacteria, 4214; Archaea, 174; Eukaryota, 1939.